exon junction detection in cDNAs?

[Keith Robison]

ibelgaufts at vms.biochem.mpg.de (horst ibelgaufts) writes:

>Dear Netters,
>is there a programme (preferably for Macintosh) that will allow you to
>detect exon junctions in a cDNA sequence?


If you have the genomic sequence, then just aligning the cDNA and gDNA
is the way to go.  If you don't have the genomic sequence, then it 
is basically hopeless because almost all the splicing info resides on
in the intron (see J.Mol.Biol. 228:1124-1136 for a particularly 
beautiful depiction of this).

Keith Robison
Harvard University
Department of Cellular and Developmental Biology
Department of Genetics / HHMI

robison at biosun.harvard.edu